| 04/01/06 | hosting | New England Revolution | 0-1 |
| 04/08/06 | hosting | Chicago Fire | 1-1 |
| 04/15/06 | at | Chivas USA | 2-1 |
| 04/22/06 | hosting | Columbus Crew | 0-1 |
| 04/29/06 | at | Real Salt Lake | 3-2 |
| 05/06/06 | at | New England Revolution | 0-4 |
| 05/10/06 | at | FC Dallas | 0-1 |
| 05/13/06 | hosting | Real Salt Lake | 0-3 |
| 05/20/06 | hosting | Colorado Rapids | 0-1 |
| 05/31/06 | at | Colorado Rapids | 1-0 |
| 06/03/06 | at | Houston Dynamo | 1-2 |
| 06/08/06 | hosting | Chivas USA | 1-2 |
| 06/11/06 | hosting | D.C. United | 1-1 |
| 06/17/06 | at | New York Red Bulls | 1-2 |
| 06/24/06 | hosting | Houston Dynamo | 0-0 |
| 07/01/06 | at | Kansas City Wizards | 2-0 |
| 07/04/06 | hosting | New York Red Bulls | 1-0 |
| 07/08/06 | hosting | Real Salt Lake | 2-0 |
| 07/15/06 | at | Chivas USA | 0-0 |
| 07/22/06 | at | Columbus Crew | 1-1 |
| 08/09/06 | at | Houston Dynamo | 1-0 |
| 08/12/06 | at | Colorado Rapids | 0-1 |
| 08/20/06 | hosting | FC Dallas | 2-0 |
| 08/26/06 | at | D.C. United | 5-2 |
| 08/30/06 | at | Real Salt Lake | 0-1 |
| 09/02/06 | hosting | Kansas City Wizards | 2-1 |
| 09/10/06 | hosting | Houston Dynamo | 1-2 |
| 09/16/06 | hosting | Colorado Rapids | 0-0 |
| 09/23/06 | at | Chicago Fire | 1-2 |
| 09/30/06 | hosting | Chivas USA | 3-0 |
| 10/07/06 | at | FC Dallas | 1-2 |
| 10/14/06 | hosting | FC Dallas | 5-2 |